SMTL ID : 6bg6.1

Crystal structure of S111A mutant of human macrophage migration inhibitory factor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.52 Å

Oligo State

homo-trimer

Ligands

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 4 residues within 4Å: Chain A: G.68, G.69, A.70, Q.71 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.69, A:A.70, A:Q.71, A:Q.71 SO4.6: 4 residues within 4Å: Chain B: G.68, G.69, A.70, Q.71 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.68, B:G.69, B:A.70, B:Q.71, B:Q.71 SO4.11: 4 residues within 4Å: Chain C: G.68, G.69, A.70, Q.71 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:G.69, C:A.70, C:Q.71, C:Q.71

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 9 residues within 4Å: Chain A: P.1, M.2, H.62, S.63, I.64, V.106, F.113 Chain C: Y.95, N.97 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:P.1, A:M.2, A:H.62, A:I.64, C:N.97, C:N.97 GOL.7: 8 residues within 4Å: Chain A: Y.95, N.97 Chain B: P.1, M.2, H.62, S.63, I.64, V.106 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.97, A:N.97, B:H.62, B:I.64 GOL.12: 8 residues within 4Å: Chain B: N.97 Chain C: P.1, M.2, H.62, S.63, I.64, M.101, V.106 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:N.97, B:N.97, C:P.1, C:I.64

6 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.3: 2 residues within 4Å: Chain A: G.65, K.66 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:K.66 Hydrogen bonds: A:K.66 Water bridges: A:I.67, A:I.67 IPA.4: 3 residues within 4Å: Chain A: Q.35, Y.36, W.108 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.36, A:W.108 IPA.5: 3 residues within 4Å: Chain A: K.32, I.64, F.113 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.64, A:F.113 Hydrogen bonds: A:K.32 IPA.8: 2 residues within 4Å: Chain B: G.65, K.66 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:K.66 Hydrogen bonds: B:K.66 Water bridges: B:I.67, B:Q.71 IPA.9: 2 residues within 4Å: Chain B: K.32, I.64 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:K.32 IPA.10: 3 residues within 4Å: Chain B: Q.35, Y.36, W.108 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:Y.36, B:W.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pantouris, G. et al., Nanosecond Dynamics Regulate the MIF-Induced Activity of CD74. Angew. Chem. Int. Ed. Engl. (2018)

Release Date

2018-06-06

Peptides

Macrophage migration inhibitory factor: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Macrophage migration inhibitory factor